STRAP: editor for STRuctural Alignments of Proteins | Zendy

Christoph Gille | Zendy; Cornelius Frömmel | Zendy

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STRAP: editor for STRuctural Alignments of Proteins

Author(s) -

Christoph Gille,

Cornelius Frömmel

Publication year - 2001

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/17.4.377

Subject(s) - ascii , computer science , genbank , programming language , sequence (biology) , source code , sequence alignment , java , computer graphics (images) , bundle , visualization , code (set theory) , information retrieval , data mining , set (abstract data type) , biology , peptide sequence , biochemistry , genetics , gene , materials science , composite material

STRAP is a comfortable and extensible tool for the generation and refinement of multiple alignments of protein sequences. Various sequence ordered input file formats are supported. These are the SwissProt-,GenBank-, EMBL-, DSSP- PDB-, MSF-, and plain ASCII text format. The special feature of STRAP is the simple visualization of spatial distances C(alpha)-atoms within the alignment. Thus structural information can easily be incorporated into the sequence alignment and can guide the alignment process in cases of low sequence similarities. Further STRAP is able to manage huge alignments comprising a lot of sequences. The protein viewers and modeling programs INSIGHT, RASMOL and WEBMOL are embedded into STRAP. STRAP is written in JAVA: The well-documented source code can be adapted easily to special requirements. STRAP may become the basis for complex alignment tools in the future.

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